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(-) Description

Title :  REFINED SOLUTION STRUCTURE OF THE HUMAN TSG-6 LINK MODULE
 
Authors :  C. D. Blundell, P. Teriete, J. D. Kahmann, A. R. Pickford, I. D. Campbell
Date :  29 Oct 02  (Deposition) - 23 Oct 03  (Release) - 14 Jun 17  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  T  (20x)
NMR Structure *:  T  (1x)
Keywords :  Hyaluronan-Binding Domain, Carbohydrate-Binding Domain, Link Module, Cell Adhesion, Glycoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. D. Blundell, D. Mahoney, A. Almond, P. Deangelis, J. D. Kahmann, P. Teriete, A. R. Pickford, I. D. Campbell, A. J. Day
The Link Module From Ovulation- And Inflammation-Associated Protein Tsg-6 Changes Conformation On Hyaluronan Binding
J. Biol. Chem. V. 278 49261 2003
PubMed-ID: 12972412  |  Reference-DOI: 10.1074/JBC.M309623200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - TUMOR NECROSIS FACTOR-INDUCIBLE PROTEIN TSG-6
    Chains: T
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRK172
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector: PET
    Fragment: LINK_MODULE, RESIDUES 36-133
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: EXTRACELLULAR, INFLAMMATION-ASSOCIATED
    Synonym: HUMAN TSG-6, HYALURONATE-BINDING PROTEIN, TNF-STIMULATED GENE 6 PROTEIN

 Structural Features

(-) Chains, Units

  1
NMR Structure (20x): T
NMR Structure * (1x): T

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1O7B)

(-) Sites  (0, 0)

(no "Site" information available for 1O7B)

(-) SS Bonds  (2, 2)

NMR Structure
No.Residues
1T:23 -T:92
2T:47 -T:68

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1O7B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1O7B)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LINK_2PS50963 Link domain profile.TSG6_HUMAN36-129  1T:1-94
2LINK_1PS01241 Link domain signature.TSG6_HUMAN58-103  1T:23-68
NMR Structure * (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LINK_2PS50963 Link domain profile.TSG6_HUMAN36-129  1T:1-94
2LINK_1PS01241 Link domain signature.TSG6_HUMAN58-103  1T:23-68

(-) Exons   (3, 3)

NMR Structure (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000002433471ENSE00000840475chr2:152214106-152214274169TSG6_HUMAN1-32320--
1.2ENST000002433472ENSE00000840476chr2:152220457-152220594138TSG6_HUMAN32-78471T:1-4343
1.3aENST000002433473aENSE00000840477chr2:152222570-152222731162TSG6_HUMAN78-132551T:43-9755
1.4ENST000002433474ENSE00000840478chr2:152226534-152226762229TSG6_HUMAN132-208771T:97-982
1.5aENST000002433475aENSE00000840479chr2:152230063-15223010341TSG6_HUMAN208-222150--
1.6ENST000002433476ENSE00001217763chr2:152235878-152236560683TSG6_HUMAN222-277560--

(-) Sequences/Alignments

NMR Structure
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain T from PDB  Type:PROTEIN  Length:98
 aligned with TSG6_HUMAN | P98066 from UniProtKB/Swiss-Prot  Length:277

    Alignment length:98
                                    45        55        65        75        85        95       105       115       125        
           TSG6_HUMAN    36 GVYHREARSGKYKLTYAEAKAVCEFEGGHLATYKQLEAARKIGFHVCAAGWMAKGRVGYPIVKPGPNCGFGKTGIIDYGIRLNRSERWDAYCYNPHAK 133
               SCOP domains d1o7bt_ T: TSG-6, Link module                                                                      SCOP domains
               CATH domains 1o7bT00 T:1-98 Mannose-Binding Protein A, subunit A                                                CATH domains
               Pfam domains Xlink-1o7bT01 T:1-93                                                                         ----- Pfam domains
         Sec.struct. author .eeee..........hhhhhhhhhh...eee.hhhhhhhhhh......eeee...eeeeee............eeee...........eeeee..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) LINK_2  PDB: T:1-94 UniProt: 36-129                                                           ---- PROSITE (1)
                PROSITE (2) ----------------------LINK_1  PDB: T:23-68 UniProt: 58-103          ------------------------------ PROSITE (2)
           Transcript 1 (1) Exon 1.2  PDB: T:1-43 UniProt: 32-78       -----------------------------------------------------1. Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------Exon 1.3a  PDB: T:43-97 UniProt: 78-132                - Transcript 1 (2)
                 1o7b T   1 GVYHREARSGKYKLTYAEAKAVCEFEGGHLATYKQLEAARKIGFHVCAAGWMAKGRVGYPIVKPGPNCGFGKTGIIDYGIRLNRSERWDAYCYNPHAK  98
                                    10        20        30        40        50        60        70        80        90
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

NMR Structure
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

NMR Structure
(-)
Clan: C_Lectin (98)

(-) Gene Ontology  (6, 6)

NMR Structure(hide GO term definitions)
Chain T   (TSG6_HUMAN | P98066)
molecular function
    GO:0005540    hyaluronic acid binding    Interacting selectively and non-covalently with hyaluronic acid, a polymer composed of repeating dimeric units of glucuronic acid and N-acetyl glucosamine.
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0007267    cell-cell signaling    Any process that mediates the transfer of information from one cell to another. This process includes signal transduction in the receiving cell and, where applicable, release of a ligand and any processes that actively facilitate its transport and presentation to the receiving cell. Examples include signaling via soluble ligands, via cell adhesion molecules and via gap junctions.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0050728    negative regulation of inflammatory response    Any process that stops, prevents, or reduces the frequency, rate or extent of the inflammatory response.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.

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  1o7b
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        TSG6_HUMAN | P98066: 1o7c 2n40 2pf5 2wno

(-) Related Entries Specified in the PDB File

6392
1o7c SOLUTION STRUCTURE OF THE HUMAN TSG-6 LINK MODULE IN THE PRESENCE OF A HYALURONAN OCTASACCHARIDE
1tsg NMR STUDY OF THE LINK MODULE FROM TSG-6 MINIMIZED AVERAGE STRUCTURE